| OpenSWATH enables automated, targeted analysis of data-independent acquisition MS data HL Röst, G Rosenberger, P Navarro, L Gillet, SM Miladinović, ... Nature biotechnology 32 (3), 219-223, 2014 | 860 | 2014 |
| Macromolecular modeling and design in Rosetta: recent methods and frameworks JK Leman, BD Weitzner, SM Lewis, J Adolf-Bryfogle, N Alam, RF Alford, ... Nature methods 17 (7), 665-680, 2020 | 725 | 2020 |
| OpenMS: a flexible open-source software platform for mass spectrometry data analysis HL Röst, T Sachsenberg, S Aiche, C Bielow, H Weisser, F Aicheler, ... Nature methods 13 (9), 741-748, 2016 | 695 | 2016 |
| An objective comparison of cell-tracking algorithms V Ulman, M Maška, KEG Magnusson, O Ronneberger, C Haubold, ... Nature methods 14 (12), 1141-1152, 2017 | 619 | 2017 |
| Structural probing of a protein phosphatase 2A network by chemical cross-linking and mass spectrometry F Herzog, A Kahraman, D Boehringer, R Mak, A Bracher, T Walzthoeni, ... Science 337 (6100), 1348-1352, 2012 | 454 | 2012 |
| Automated prediction of CASP‐5 structures using the Robetta server D Chivian, DE Kim, L Malmström, P Bradley, T Robertson, P Murphy, ... Proteins: Structure, Function, and Bioinformatics 53 (S6), 524-533, 2003 | 373 | 2003 |
| Assigning function to yeast proteins by integration of technologies TR Hazbun, L Malmström, S Anderson, BJ Graczyk, B Fox, M Riffle, ... Molecular cell 12 (6), 1353-1365, 2003 | 340 | 2003 |
| De novo prediction of three-dimensional structures for major protein families R Bonneau, CEM Strauss, CA Rohl, D Chivian, P Bradley, L Malmström, ... Journal of molecular biology 322 (1), 65-78, 2002 | 336 | 2002 |
| Structure prediction for CASP7 targets using extensive all‐atom refinement with Rosetta@ home R Das, B Qian, S Raman, R Vernon, J Thompson, P Bradley, S Khare, ... Proteins: Structure, Function, and Bioinformatics 69 (S8), 118-128, 2007 | 282 | 2007 |
| Free modeling with Rosetta in CASP6 P Bradley, L Malmström, B Qian, J Schonbrun, D Chivian, DE Kim, ... Proteins: Structure, Function, and Bioinformatics 61 (S7), 128-134, 2005 | 203 | 2005 |
| Prediction of CASP6 structures using automated Robetta protocols D Chivian, DE Kim, L Malmström, J Schonbrun, CA Rohl, D Baker Proteins: Structure, Function, and Bioinformatics 61 (S7), 157-166, 2005 | 194 | 2005 |
| TRIC: an automated alignment strategy for reproducible protein quantification in targeted proteomics HL Röst, Y Liu, G D'Agostino, M Zanella, P Navarro, G Rosenberger, ... Nature methods 13 (9), 777-783, 2016 | 191 | 2016 |
| An automated pipeline for high-throughput label-free quantitative proteomics H Weisser, S Nahnsen, J Grossmann, L Nilse, A Quandt, H Brauer, ... Journal of proteome research 12 (4), 1628-1644, 2013 | 188 | 2013 |
| Cross-link guided molecular modeling with ROSETTA A Kahraman, F Herzog, A Leitner, G Rosenberger, R Aebersold, ... PloS one 8 (9), e73411, 2013 | 186 | 2013 |
| openBIS: a flexible framework for managing and analyzing complex data in biology research A Bauch, I Adamczyk, P Buczek, FJ Elmer, K Enimanev, P Glyzewski, ... BMC bioinformatics 12, 1-19, 2011 | 172 | 2011 |
| Xwalk: computing and visualizing distances in cross-linking experiments A Kahraman, L Malmström, R Aebersold Bioinformatics 27 (15), 2163-2164, 2011 | 171 | 2011 |
| pyOpenMS: a Python‐based interface to the OpenMS mass‐spectrometry algorithm library HL Röst, U Schmitt, R Aebersold, L Malmström Proteomics 14 (1), 74-77, 2014 | 147 | 2014 |
| Inference and quantification of peptidoforms in large sample cohorts by SWATH-MS G Rosenberger, Y Liu, HL Röst, C Ludwig, A Buil, A Bensimon, M Soste, ... Nature biotechnology 35 (8), 781-788, 2017 | 139 | 2017 |
| FAIRDOMHub: a repository and collaboration environment for sharing systems biology research K Wolstencroft, O Krebs, JL Snoep, NJ Stanford, F Bacall, M Golebiewski, ... Nucleic acids research 45 (D1), D404-D407, 2017 | 133 | 2017 |
| DIANA—algorithmic improvements for analysis of data-independent acquisition MS data J Teleman, HL Röst, G Rosenberger, U Schmitt, L Malmström, ... Bioinformatics 31 (4), 555-562, 2015 | 121 | 2015 |
Johan MalmströmProfessor Infection medicine, Lund UniveristyVerified email at med.lu.se